This is the RMarkdown file for the FTICR results from the 3Soils experiment. Tables and figures for molecular results.

Run: 2020-04-21

Color palette used: treatments == viridis | | | | |—–|—–|—–| |field moist | #35b779ff| green |drought |#fde725ff | yellow |flood | #443a83ff | blue

FTICR domains

domains with NOSC

FTICR Pores – figures

native SOM

treatment effect – all peaks

treatment effect – unique peaks

unique in each treatment compared to all, including TZsaturation these are peaks that were uniquely added during a given treatment

peaks lost and gained

treatment effect – relative abundance

Relative abundance

Relative abundance

treatment effect – NOSC

NOSC for CPCRW

NOSC for CPCRW

NOSC table

tension site drought field moist saturation time zero saturation
1.5 kPa CPCRW -0.4615 -0.4545 -0.6207 -0.5217
1.5 kPa DWP -0.5714 -0.4000 -0.4000 -0.4000
1.5 kPa SR -0.7333 -0.7586 -0.6000 -0.7500
50 kPa CPCRW -0.3750 -0.3077 -0.4615 -0.3333
50 kPa DWP -0.4828 -0.3478 -0.3333 -0.3636
50 kPa SR -0.6250 -0.6667 -0.7826 -0.5578

aromatic peaks

not doing much with aromatic peaks, because it excludes many lignins and tannins that contain aromatic groups

shannon diversity index –

aromatic peaks

aromatic peaks

FTICR Pores – tables

peaks

#> [1] "50 kPa"
site Class drought field moist saturation time zero saturation
CPCRW AminoSugar 201 5 17 10
CPCRW Carb 255 7 51 15
CPCRW Lipid 148 38 152 120
CPCRW Protein 511 79 352 180
CPCRW UnsatHC 2 8 1 9
CPCRW ConHC 138 136 150 247
CPCRW Lignin 1391 1001 1168 1230
CPCRW Tannin 229 93 118 120
CPCRW Other 11 8 1 10
CPCRW total 2886 1375 2010 1941
DWP AminoSugar 34 18 23 254
DWP Carb 68 2 24 273
DWP Lipid 132 54 103 146
DWP Protein 416 188 250 535
DWP UnsatHC 4 3 8 15
DWP ConHC 105 132 194 144
DWP Lignin 1062 996 1072 1243
DWP Tannin 78 105 150 187
DWP Other 10 1 2 20
DWP total 1909 1499 1826 2817
SR AminoSugar 6 26 57 34
SR Carb 5 18 11 2
SR Lipid 133 176 228 108
SR Protein 245 250 490 283
SR UnsatHC 3 15 15 16
SR ConHC 3 13 15 61
SR Lignin 593 741 738 776
SR Tannin 4 11 10 30
SR Other 1 4 4 2
SR total 993 1254 1568 1312 
#> [1] "1.5 kPa"
site Class drought field moist saturation time zero saturation
CPCRW AminoSugar 129 13 21 36
CPCRW Carb 181 22 27 15
CPCRW Lipid 98 122 204 142
CPCRW Protein 395 270 431 446
CPCRW UnsatHC 3 15 13 14
CPCRW ConHC 53 142 95 171
CPCRW Lignin 854 1034 1029 981
CPCRW Tannin 98 92 62 92
CPCRW Other 27 8 10 6
CPCRW total 1838 1718 1892 1903
DWP AminoSugar 25 20 2 265
DWP Carb 75 6 12 310
DWP Lipid 114 106 70 122
DWP Protein 324 248 143 511
DWP UnsatHC 4 8 6 12
DWP ConHC 35 152 151 55
DWP Lignin 778 1029 744 900
DWP Tannin 18 97 41 138
DWP Other 14 6 2 29
DWP total 1387 1672 1171 2342
SR AminoSugar 20 53 16 45
SR Carb 3 23 8 9
SR Lipid 188 168 106 135
SR Protein 301 428 115 376
SR UnsatHC 11 11 19 17
SR ConHC 25 13 26 32
SR Lignin 581 617 518 531
SR Tannin 11 10 10 9
SR Other 3 5 NA 3
SR total 1143 1328 818 1157

unique peaks

#> [1] "50 kPa"
site Class drought field moist saturation
CPCRW AminoSugar 185 NA 2
CPCRW Carb 202 1 NA
CPCRW Lipid 20 1 20
CPCRW Protein 182 NA 21
CPCRW UnsatHC NA 2 NA
CPCRW ConHC 5 4 4
CPCRW Lignin 214 9 23
CPCRW Tannin 99 NA 5
CPCRW Other 7 NA NA
DWP AminoSugar 4 2 2
DWP Carb 6 NA NA
DWP Lipid 20 NA 10
DWP Protein 68 7 4
DWP UnsatHC NA NA 2
DWP ConHC 6 5 57
DWP Lignin 26 13 34
DWP Tannin 1 2 32
DWP Other 4 NA NA
SR AminoSugar NA 10 19
SR Carb 2 9 1
SR Lipid 28 11 57
SR Protein 9 12 116
SR UnsatHC NA 1 2
SR ConHC NA NA 3
SR Lignin 2 14 64
SR Tannin NA NA 3
SR Other NA 2 2 
#> [1] "1.5 kPa"
site Class drought field moist saturation
CPCRW AminoSugar 108 NA 2
CPCRW Carb 160 4 3
CPCRW Lipid 8 5 65
CPCRW Protein 71 4 42
CPCRW UnsatHC NA 7 3
CPCRW ConHC 5 3 3
CPCRW Lignin 67 42 74
CPCRW Tannin 15 5 NA
CPCRW Other 17 NA NA
DWP AminoSugar 7 6 NA
DWP Carb 5 NA NA
DWP Lipid 23 11 3
DWP Protein 37 9 NA
DWP UnsatHC NA 4 2
DWP ConHC 4 29 26
DWP Lignin 21 122 2
DWP Tannin 1 34 NA
DWP Other 6 4 NA
SR AminoSugar NA 11 3
SR Carb NA 15 1
SR Lipid 51 16 3
SR Protein 20 70 8
SR UnsatHC NA NA 4
SR ConHC 7 10 8
SR Lignin 49 82 18
SR Tannin 4 5 1
SR Other 1 4 NA

relative abundance

#> [1] "50 kPa"
site Class drought field moist saturation time zero saturation
CPCRW AminoSugar 5.8 ± 0.74 * 0.36 ± 0 0.77 ± 0.08 0.47 ± 0.06
CPCRW Carb 7.97 ± 0.58 * 0.51 ± 0 1.99 ± 0.65 0.51 ± 0.17
CPCRW Lipid 5.33 ± 0.33 2.76 ± 0 * 7.37 ± 0.26 * 5.53 ± 0.51
CPCRW Protein 18.01 ± 0.67 * 5.75 ± 0 * 17.37 ± 0.31 * 8.73 ± 0.69
CPCRW UnsatHC 0.06 ± 0.01 * 0.58 ± 0 * 0.05 ± 0 * 0.38 ± 0.07
CPCRW ConHC 4.62 ± 0.38 * 9.89 ± 0 7.26 ± 0.46 * 11.07 ± 1.54
CPCRW Lignin 50.28 ± 0.82 * 72.8 ± 0 * 59.32 ± 0.71 * 66.41 ± 1.05
CPCRW Tannin 7.56 ± 0.56 6.76 ± 0 5.84 ± 0.04 6.56 ± 0.26
CPCRW Other 0.37 ± 0.02 0.58 ± 0 0.05 ± 0 0.42 ± 0.12
DWP AminoSugar 1.62 ± 0.16 * 1.2 ± 0 * 1.09 ± 0.14 * 8.52 ± 0.81
DWP Carb 3.4 ± 0.23 * 0.13 ± 0 * 1.26 ± 0.18 * 9.37 ± 0.71
DWP Lipid 6.72 ± 0.19 3.6 ± 0 4.98 ± 0.68 4.95 ± 0.6
DWP Protein 21.71 ± 0.48 12.54 ± 0 * 13.29 ± 1.35 * 18.81 ± 0.33
DWP UnsatHC 0.19 ± 0.02 * 0.2 ± 0 * 0.38 ± 0.07 0.51 ± 0.03
DWP ConHC 5.07 ± 0.56 8.81 ± 0 * 10.45 ± 0.72 * 4.87 ± 0.31
DWP Lignin 56.83 ± 0.32 * 66.44 ± 0 * 60.45 ± 1.67 * 45.65 ± 1.16
DWP Tannin 3.95 ± 0.14 7 ± 0 8 ± 1.2 6.58 ± 0.05
DWP Other 0.51 ± 0.02 0.07 ± 0 0.12 ± 0.01 0.73 ± 0.03
SR AminoSugar 0.5 ± 0.11 * 2.09 ± 0.11 3.4 ± 0.12 * 2.13 ± 0.57
SR Carb 0.51 ± 0 * 1.11 ± 0.14 * 0.61 ± 0.03 * 0.14 ± 0.03
SR Lipid 11.51 ± 1.93 13.35 ± 0.52 * 14.41 ± 0.54 * 8.19 ± 1.01
SR Protein 21.26 ± 3.68 18.53 ± 1.62 31.9 ± 0.27 * 20.61 ± 2.69
SR UnsatHC 0.25 ± 0.03 * 1.21 ± 0.06 0.91 ± 0.08 1.1 ± 0.23
SR ConHC 0.32 ± 0.01 * 0.93 ± 0.06 * 0.96 ± 0.03 * 3.95 ± 1.08
SR Lignin 65.32 ± 5.84 61.8 ± 1.77 47.02 ± 0.7 * 61.77 ± 3.38
SR Tannin 0.37 ± 0.03 * 0.72 ± 0.14 * 0.56 ± 0.1 * 1.99 ± 0.4
SR Other 0.13 ± 0.02 0.25 ± 0.04 0.22 ± 0.05 0.16 ± 0.02

total = 100%

#> [1] "1.5 kPa"
site Class drought field moist saturation time zero saturation
CPCRW AminoSugar 6.03 ± 0.61 * 0.65 ± 0.06 0.94 ± 0.13 1.72 ± 0.17
CPCRW Carb 9.1 ± 0.74 * 0.84 ± 0.28 1.18 ± 0.17 0.7 ± 0.09
CPCRW Lipid 5.37 ± 0.19 * 7.27 ± 0.43 10.88 ± 0.46 * 7.73 ± 0.59
CPCRW Protein 22.43 ± 1.1 17.16 ± 1.35 23.04 ± 0.78 22.04 ± 2.32
CPCRW UnsatHC 0.14 ± 0.03 * 0.67 ± 0.11 0.64 ± 0.02 0.62 ± 0.07
CPCRW ConHC 2.59 ± 0.4 * 7.63 ± 0.58 4.32 ± 0.86 6.64 ± 1.87
CPCRW Lignin 48.02 ± 0.81 * 60.41 ± 0.94 * 55.51 ± 0.12 55.57 ± 1.94
CPCRW Tannin 5.04 ± 0.5 5.07 ± 0.24 3.08 ± 0.33 * 4.77 ± 0.31
CPCRW Other 1.3 ± 0.08 0.38 ± 0.09 0.41 ± 0.08 0.27 ± 0.07
DWP AminoSugar 1.55 ± 0.16 * 1.07 ± 0.2 * 0.16 ± 0.02 * 8.94 ± 1.55
DWP Carb 5.48 ± 0.43 * 0.34 ± 0.03 * 0.86 ± 0.3 * 10.87 ± 2.15
DWP Lipid 8.11 ± 0.64 6.16 ± 0.21 6.33 ± 0.86 7.45 ± 2.43
DWP Protein 24.08 ± 0.89 14.32 ± 1.25 * 12.03 ± 1.3 * 26.79 ± 4.57
DWP UnsatHC 0.27 ± 0.04 * 0.41 ± 0.09 0.53 ± 0.08 0.59 ± 0.09
DWP ConHC 1.94 ± 0.37 7.93 ± 1.55 * 12.15 ± 1.42 * 1.9 ± 0.33
DWP Lignin 56.59 ± 1.27 * 63.53 ± 1.02 * 64.52 ± 1.7 * 38.04 ± 2.26
DWP Tannin 0.99 ± 0.16 * 5.93 ± 0.17 3.24 ± 0.28 4.41 ± 1.19
DWP Other 0.97 ± 0.03 0.32 ± 0.04 0.17 ± 0.04 1.01 ± 0.2
SR AminoSugar 1.31 ± 0.36 * 3.68 ± 0.46 1.87 ± 0.17 * 3.73 ± 0.16
SR Carb 0.25 ± 0.04 1.69 ± 0.44 * 0.89 ± 0.08 0.7 ± 0.04
SR Lipid 16.86 ± 0.61 * 12.43 ± 0.25 12.89 ± 0.29 11.64 ± 0.14
SR Protein 21.9 ± 3.95 * 30.01 ± 3.06 13.45 ± 0.64 * 33.57 ± 0.94
SR UnsatHC 1.11 ± 0.21 0.9 ± 0.15 * 2.21 ± 0.07 * 1.47 ± 0.02
SR ConHC 1.77 ± 0.58 0.91 ± 0.13 2.68 ± 0.67 2.56 ± 0.38
SR Lignin 55.8 ± 4.48 49.36 ± 2.11 64.99 ± 0.75 * 45.26 ± 1.34
SR Tannin 1.18 ± 0.21 0.69 ± 0.17 1.02 ± 0.13 0.8 ± 0.09
SR Other 0.34 ± 0.14 0.34 ± 0.07 NA 0.27 ± 0.04

total = 100% ## aromatic peaks

Shannon diversity

treatment 1.5 kPa CPCRW 1.5 kPa DWP 1.5 kPa SR 50 kPa CPCRW 50 kPa DWP 50 kPa SR
drought 1.53 ± 0.01 * 1.27 ± 0.02 * 1.17 ± 0.07 * 1.53 ± 0.02 * 1.33 ± 0.01 * 0.94 ± 0.1
field moist 1.26 ± 0.02 1.21 ± 0.03 * 1.28 ± 0.02 1.01 ± 0 * 1.13 ± 0 * 1.15 ± 0.02
saturation 1.29 ± 0.02 1.16 ± 0.04 * 1.15 ± 0.03 * 1.28 ± 0.03 * 1.28 ± 0.04 * 1.27 ± 0.01
time zero saturation 1.31 ± 0.04 1.6 ± 0.06 1.34 ± 0.01 1.15 ± 0.03 1.64 ± 0.02 1.15 ± 0.07

FTICR Soil – figures

native SOM

treatment effect – all peaks

treatment effect – unique peaks

peaks lost and gained

treatment effect – relative abundance

NOSC

NOSC table

site baseline drought field moist saturation time zero saturation
CPCRW -0.3636 -0.3529 -0.3846 -0.4211 -0.4000
DWP -0.3200 -0.4545 -0.4444 -0.4211 -0.3871
SR -0.2963 -0.3333 -0.4444 -0.4286 -0.3750

lost/gained NOSC

aromatic peaks

FTICR Soil – tables

relative abundance

site Class baseline drought field moist saturation time zero saturation
CPCRW AminoSugar 5.46 ± 0.16 4.06 ± 0.11 * 4.63 ± 0.1 * 5.66 ± 0.11 5.53 ± 0.15
CPCRW Carb 6.16 ± 0.16 4.57 ± 0.06 * 5.53 ± 0.1 * 6.64 ± 0.12 * 6.72 ± 0.12
CPCRW Lipid 9.3 ± 0.34 9.8 ± 0.17 11.16 ± 0.23 * 12.22 ± 0.2 * 11.43 ± 0.28
CPCRW Protein 14.68 ± 0.24 13.48 ± 0.19 * 14 ± 0.13 15.67 ± 0.17 * 15.44 ± 0.3
CPCRW UnsatHC 4.1 ± 0.27 5.4 ± 0.17 * 5.2 ± 0.08 * 4.89 ± 0.07 * 4.82 ± 0.04
CPCRW ConHC 14.62 ± 0.43 16.89 ± 0.38 * 15.51 ± 0.1 12.99 ± 0.23 * 13.8 ± 0.26
CPCRW Lignin 34.91 ± 0.48 35.65 ± 0.18 34.32 ± 0.32 32.26 ± 0.23 * 32.77 ± 0.32
CPCRW Tannin 6.91 ± 0.29 6.24 ± 0.08 * 5.69 ± 0.08 * 5.86 ± 0.12 * 5.84 ± 0.1
CPCRW Unnamed 3.84 ± 0.11 3.91 ± 0.05 3.96 ± 0.02 3.81 ± 0.07 3.65 ± 0.1
DWP AminoSugar 7.31 ± 0.12 4.1 ± 0.07 * 4.7 ± 0.05 * 4.08 ± 0.09 * 5.21 ± 0.15
DWP Carb 9.92 ± 0.05 4.64 ± 0.07 * 6.07 ± 0.08 * 5.51 ± 0.12 * 6.92 ± 0.12
DWP Lipid 9.31 ± 0.08 13.72 ± 0.22 * 13.65 ± 0.09 * 13.85 ± 0.3 * 12.05 ± 0.47
DWP Protein 14.49 ± 0.11 16.29 ± 0.19 * 16.48 ± 0.14 * 13.77 ± 0.16 * 14.04 ± 0.06
DWP UnsatHC 4.19 ± 0.03 5.58 ± 0.05 * 4.75 ± 0.05 * 6.23 ± 0.07 * 5.47 ± 0.16
DWP ConHC 12.17 ± 0.22 16.38 ± 0.09 * 15.19 ± 0.23 * 16.71 ± 0.3 * 15.82 ± 0.12
DWP Lignin 31.74 ± 0.17 31.48 ± 0.19 31.57 ± 0.19 31.03 ± 0.25 31.49 ± 0.32
DWP Tannin 7.03 ± 0.05 4.07 ± 0.09 * 4.15 ± 0.11 * 4.91 ± 0.1 * 5.11 ± 0.15
DWP Unnamed 3.84 ± 0.04 3.74 ± 0.07 3.44 ± 0.1 * 3.91 ± 0.07 3.89 ± 0.04
SR AminoSugar 3.41 ± 0.13 4.64 ± 0.08 * 5.26 ± 0.22 * 5.13 ± 0.11 * 4.18 ± 0.06
SR Carb 5.33 ± 0.03 5.48 ± 0.11 6.56 ± 0.45 * 6.63 ± 0.38 * 4.94 ± 0.19
SR Lipid 12.02 ± 0.23 10.06 ± 0.26 * 12.78 ± 0.21 12.45 ± 0.15 12.79 ± 0.17
SR Protein 12.17 ± 0.47 14 ± 0.39 * 14.93 ± 0.48 * 15.35 ± 0.19 * 14.15 ± 0.2
SR UnsatHC 5.76 ± 0.13 5.37 ± 0.13 6.32 ± 0.13 * 6.16 ± 0.1 6.61 ± 0.11
SR ConHC 20.77 ± 0.76 17.19 ± 0.19 * 12.84 ± 0.89 * 13.3 ± 0.48 * 17.08 ± 0.3
SR Lignin 31.98 ± 0.26 33.9 ± 0.42 * 33.08 ± 0.16 * 32.68 ± 0.22 30.76 ± 0.31
SR Tannin 5.24 ± 0.13 5.28 ± 0.12 4.7 ± 0.06 * 4.74 ± 0.08 * 5.1 ± 0.04
SR Unnamed 3.32 ± 0.06 4.09 ± 0.05 * 3.53 ± 0.08 3.56 ± 0.16 4.38 ± 0.15

peaks

site Class baseline drought field moist saturation time zero saturation
CPCRW AminoSugar 495 431 523 587 540
CPCRW Carb 554 472 603 675 655
CPCRW Lipid 914 1056 1304 1353 1226
CPCRW Protein 1313 1366 1528 1627 1527
CPCRW UnsatHC 427 608 618 577 544
CPCRW ConHC 1358 1684 1711 1379 1376
CPCRW Lignin 3032 3414 3596 3237 3156
CPCRW Tannin 587 603 598 585 563
CPCRW Unnamed 385 428 463 436 391
CPCRW total 9065 10062 10944 10456 9978
DWP AminoSugar 742 435 291 448 615
DWP Carb 994 476 369 589 774
DWP Lipid 990 1462 841 1555 1447
DWP Protein 1480 1653 982 1458 1615
DWP UnsatHC 461 632 308 716 683
DWP ConHC 1272 1649 923 1787 1839
DWP Lignin 3215 3088 1868 3191 3551
DWP Tannin 706 425 259 523 596
DWP Unnamed 406 415 223 454 486
DWP total 10266 10235 6064 10721 11606
SR AminoSugar 247 552 625 607 427
SR Carb 373 631 776 755 495
SR Lipid 835 1220 1546 1505 1316
SR Protein 836 1618 1725 1782 1406
SR UnsatHC 410 651 767 770 687
SR ConHC 1368 2000 1503 1621 1737
SR Lignin 2111 3758 3702 3651 2951
SR Tannin 362 607 536 547 510
SR Unnamed 252 504 448 461 481
SR total 6794 11541 11628 11699 10010
## uniqu e peaks
site Class drought field moist saturation
CPCRW AminoSugar 153 161 166
CPCRW Carb 150 190 209
CPCRW Lipid 513 659 674
CPCRW Protein 469 484 552
CPCRW UnsatHC 289 284 298
CPCRW ConHC 634 650 440
CPCRW Lignin 965 1012 844
CPCRW Tannin 157 147 149
CPCRW Unnamed 202 221 210
DWP AminoSugar 147 72 140
DWP Carb 125 71 184
DWP Lipid 734 271 832
DWP Protein 627 194 515
DWP UnsatHC 329 123 386
DWP ConHC 620 236 735
DWP Lignin 962 323 1043
DWP Tannin 151 58 189
DWP Unnamed 222 84 251
SR AminoSugar 196 171 172
SR Carb 211 184 168
SR Lipid 541 690 647
SR Protein 517 522 521
SR UnsatHC 257 319 332
SR ConHC 851 511 632
SR Lignin 1110 966 964
SR Tannin 246 147 175
SR Unnamed 253 211 221

aromatic peaks

Shannon diversity

treatment CPCRW DWP SR
baseline 1.92 ± 0.01 1.99 ± 0 1.9 ± 0.01
drought 1.89 ± 0 * 1.91 ± 0 * 1.92 ± 0
field moist 1.92 ± 0.01 1.93 ± 0 * 1.94 ± 0 *
saturation 1.96 ± 0 * 1.95 ± 0 * 1.95 ± 0 *
time zero saturation 1.95 ± 0 1.96 ± 0 1.95 ± 0

testing color palettes